Sequence
atgc intronic sequence ATGC exonic sequencegtatgtattatatcttttggtttatttgatcgtacactttttctcttggctcttatttttatatttaacctgaattttgcttttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
Basic information
species | Glycine max |
transcript | GLYMA16G32830.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G32830.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G07180.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtattatatcttttggtttatttgatcgtacactttttctcttggctcttatttttatatttaacctgaattttgcttttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
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gttcgt-ttctcttctctcttttacttgtatgtttgagaagaaacatggtgttaaatcct-tatgaagctctggtctttcttaatt-acagAGACTTGCAAGGAAATAAATTGGGTGGTCAAATTCCAGATGAGATTGGAAACTGTGTTTCTCTTGCTTATGT
upper sequence: GLYMA16G32830.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 3
------gtatgtattatatcttttggtttatttgatcgtacactttttctcttggctcttatttttatatttaacctgaattttgcttttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
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gtaatggttttttttccctttctttctctgttgatttgcatgtttgaactttgaaatgttgtagcttttgttcataaaggcttt-ttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
upper sequence: GLYMA16G32830.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 2
gtatgtattatatcttttggttt---atttgatcgtacactttttctcttggctcttatttttatatttaacctgaattttgcttt--tctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
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gtatttctttcacttgattgctttcaagcttatttccaacccattttctcacgacacatgattaagtctg--ttgttttttgtttgaatttggcagAGACCTGCAGGGGAATAGATTAACTGGTCAACTCCCAGATGAGATTGGCAACTGTGTTTCTCTTTCAACTTTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|18039577|gb|BM307871.1|BM307871EST: GGTGGGGAGATATCACCAGCCATTGGTGACTTAGTAAACTTGCAATCCAT AGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAA
genomic: GGTGGGGAGATATCACCAGCCATTGGTGACTTAGTAAACTTGCAATCCATgtatgtatta ... tttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttttctcttggctcttatttttatatttaacctgaattttgcttttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
atttaac putative branch site (score: 3)
ttttgcttttct putative PPT
tcttatttttatattt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtattatatcttttggtttatttgatcgtacactttttctcttggctcttatttttatatttaacctgaattttgcttttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT